Abstract
In maize, two major quantitative-trait loci (QTLs) on chromosome bins 1.06 and 2.04 have been shown to affect root architecture and a number of agronomic traits, including grain yield. The QTL on bin 2.04 (root -ABA1 ) also affects root lodging and ABA concentration in the leaf. To evaluate the effects of root-ABA1 better, near-isogenic lines (NILs) have been produced and evaluated per se and in testcross combinations under different water regimes. Additionally, the NILs have been crossed to obtain large mapping populations suitable for the fine-mapping of root-ABA1 and, eventually, its map-based cloning. The identification of the sequence responsible for a target QTL can be facilitated by the candidate-gene approach coupled with a comparative in silico analysis based on sequence information of model species and other crops. Genomics, when appropriately integrated with other relevant disciplines, will positively impact our understanding of root growth and functions.
Access provided by Autonomous University of Puebla. Download to read the full chapter text
Chapter PDF
References
Comai, L., Young, K., Till, B. J., et al., 2004. Efficient discovery of DNA polymorphisms in natural populations by Ecotilling. Plant Journal, 37 (5), 778-786.
Davis, G.L., McMullen, M.D., Baysdorfer, C., et al., 1999. A maize map standard with sequenced core markers, grass genome reference points and 932 expressed sequence tagged sites (ESTs) in a 1736-locus map. Genetics, 152 (3), 1137-1172.
European Plant Science Organization, 2005. European plant science: a field of opportunities. Journal of Experimental Botany, 56 (417), 1699-1709.
Giuliani, S., Clarke, J., Kreps, J.A., et al., 2005a. Microarray analysis of backcrossed-derived lines differing for root-ABA1 , a major QTL controlling root characteristics and ABA concentration in maize. In: Tuberosa, R., Phillips, R.L. and Gale, M. eds. In the wake of the double helix from the Green Revolution to the Gene Revolution: proceedings of an international congress, University of Bologna, Italy, May 27 to 31, 2003 . Avenue media, Bologna, 463-490.
Giuliani, S., Sanguineti, M.C., Tuberosa, R., et al., 2005b. Root-ABA1 , a major constitutive QTL, affects maize root architecture and leaf ABA concentration at different water regimes. Journal of Experimental Botany, 56 (422), 3061-3070.
Granier, C., Aguirrezabal, L., Chenu, K., et al., 2006. PHENOPSIS, an automated platform for reproducible phenotyping of plant responses to soil water deficit in Arabidopsis thaliana permitted the identification of an accession with low sensitivity to soil water deficit. New Phytologist, 169 (3), 623-635.
Guo, H., Xie, Q., Fei, J., et al., 2005. MicroRNA directs mRNA cleavage of the transcription factor NAC1 to downregulate auxin signals for Arabidopsis lateral root development. Plant Cell, 17 (5), 1376-1386.
Hirel, B., Bertin, P., Quilleré, I., et al., 2001. Towards a better understanding of the genetic and physiological basis for nitrogen use efficiency in maize. Plant Physiology, 125 (3), 1258-1270.
Hochholdinger, F., Woll, K., Guo, L., et al., 2005. The accumulation of abundant soluble proteins changes early in the development of the primary roots of maize (Zea mays L.). Proteomics, 5 (18), 4885-4893.
Kaeppler, S.M., Parke, J.L., Mueller, S.M., et al., 2000. Variation among maize inbred lines and detection of quantitative trait loci for growth at low phosphorus and responsiveness to arbuscular mycorrhizal fungi. Crop Science, 40 (2), 358-364.
Kilian, A., 2005. The fast and the cheap: SNP and DArT-based whole genome profiling for crop improvement. In: Tuberosa, R., Phillips, R.L. and Gale, M. eds. In the wake of the double helix from the Green Revolution to the Gene Revolution: proceedings of an international congress, University of Bologna, Italy, May 27 to 31, 2003 . Avenue media, Bologna, 443-461.
Landi, P., Sanguineti, M.C., Darrah, L.L., et al., 2002. Detection of QTLs for vertical root pulling resistance in maize and overlap with QTLs for root traits in hydroponics and for grain yield under different water regimes. Maydica, 47 (3/4), 233-243.
Landi, P., Sanguineti, M.C., Salvi, S., et al., 2005. Validation and characterization of a major QTL affecting leaf ABA concentration in maize. Molecular Breeding, 15 (3), 291-303.
Landi, P., Sanguineti, M.C., Liu, C., et al., in press. Root-ABA1 QTL affects root lodging, grain yield and other agronomic traits in maize grown under well-watered and water-stressed conditions. Journal of Experimental Botany .
Lebreton, C., Lazic-Jancic, V., Steed, A., et al., 1995. Identification of QTL for drought responses in maize and their use in testing causal relationships between traits. Journal of Experimental Botany, 46 (288), 853-865.
Ludlow, M.M. and Muchow, R.C., 1990. A critical evaluation of traits for improving crop yields in water-limited environments. Advances in Agronomy, 43, 107-153.
O’Toole, J.C. and Bland, W.L., 1987. Genotypic variation in crop plant root systems. Advances in Agronomy, 41, 91-145.
Okushima, Y., Overvoorde, P.J., Arima, K., et al., 2005. Functional genomic analysis of the AUXIN RESPONSE FACTOR gene family members in Arabidopsis thaliana : unique and overlapping functions of ARF7 and ARF19 . Plant Cell, 17 (2), 444-463.
Pflieger, S., Lefebvre, V. and Causse, M., 2001. The candidate gene approach in plant genetics: a review. Molecular Breeding, 7 (4), 275-291.
Ribaut, J.M. and Hoisington, D., 1998. Marker-assisted selection: new tools and strategies. Trends in Plant Science, 3 (6), 236-239.
Salvi, S. and Tuberosa, R., 2005. To clone or not to clone plant QTLs: present and future challenges. Trends in Plant Science, 10 (6), 297-304.
Sauer, M., Jakob, A., Nordheim, A., et al., 2006. Proteomic analysis of shoot-borne root initiation in maize (Zea mays L.). Proteomics, 6 (8), 2530-2541.
Sawkins, M.C., Farmer, A.D., Hoisington, D., et al., 2004. Comparative Map and Trait Viewer (CMTV): an integrated bioinformatic tool to construct consensus maps and compare QTL and functional genomics data across genomes and experiments. Plant Molecular Biology, 56 (3), 465-480.
Schnable, P.S., Hochholdinger, F. and Nakazono, M., 2004. Global expression profiling applied to plant development. Current Opinion in Plant Biology, 7 (1), 50-56.
Sergeeva, L.I., Keurentjes, J.J.B., Bentsink, L., et al., 2006. Vacuolar invertase regulates elongation of Arabidopsis thaliana roots as revealed by QTL and mutant analysis. Proceedings of the National Academy of Sciences of the United States of America, 103 (8), 2994-2999.
Sharp, R.E., Poroyko, V., Hejlek, L.G., et al., 2004. Root growth maintenance during water deficits: physiology to functional genomics. Journal of Experimental Botany, 55 (407), 2343-2351.
Shen, L., Courtois, B., McNally, K.L., et al., 2001. Evaluation of near-isogenic lines of rice introgressed with QTLs for root depth through marker-aided selection. Theoretical and Applied Genetics, 103 (1), 75-83.
Steuer, R., Kurths, J., Fiehn, O., et al., 2003. Observing and interpreting correlations in metabolomic networks. Bioinformatics, 19 (8), 1019-1026.
Tardieu, F., 2003. Virtual plants: modelling as a tool for the genomics of tolerance to water deficit. Trends in Plant Science, 8 (1), 9-14.
Tuberosa, R. and Salvi, S., 2004. QTLs and genes for tolerance to abiotic stress in cereals. In: Gupta, P.K. and Varshney, R.K. eds. Cereal genomics . Kluwer Academic, Dordrecht, 253-315.
Tuberosa, R., Sanguineti, M.C., Landi, P., et al., 1998. RFLP mapping of quantitative trait loci controlling abscisic acid concentration in leaves of drought-stressed maize (Zea mays L.). Theoretical and Applied Genetics, 97 (5/6), 744-755.
Tuberosa, R., Gill, B.S. and Quarrie, S.A., 2002a. Cereal genomics: ushering in a brave new world. Plant Molecular Biology, 48 (5/6), 445-449.
Tuberosa, R., Salvi, S., Sanguineti, M.C., et al., 2002b. Mapping QTLs regulating morpho-physiological traits and yield: case studies, shortcomings and perspectives in drought-stressed maize. Annals of Botany, 89 (special issue), 941-963.
Tuberosa, R., Sanguineti, M.C., Landi, P., et al., 2002c. Identification of QTLs for root characteristics in maize grown in hydroponics and analysis of their overlap with QTLs for grain yield in the field at two water regimes. Plant Molecular Biology, 48 (5/6), 697-712.
Tuberosa, R., Salvi, S., Sanguineti, M.C., et al., 2003. Searching for quantitative trait loci controlling root traits in maize: a critical appraisal. Plant and Soil, 255 (1), 35-54.
Tuberosa, R., Frascaroli, E., Salvi, S., et al., 2005. QTLs for tolerance to abiotic stresses in maize: present status and prospects. Maydica, 50 (3/4), 559-569.
Wen, T.J., Hochholdinger, F., Sauer, M., et al., 2005. The roothairless1 gene of maize encodes a homolog of sec3, which is involved in polar exocytosis. Plant Physiology, 138 (3), 1637-1643.
Woll, K., Borsuk, L.A., Stransky, H., et al., 2005. Isolation, characterization, and pericycle-specific transcriptome analyses of the novel maize lateral and seminal root initiation mutant rum1 . Plant Physiology, 139 (3), 1255-1267.
Yu, J.M. and Buckler, E.S., 2006. Genetic association mapping and genome organization of maize. Current Opinion in Biotechnology, 17 (2), 155-160.
Zhu, J.M., Kaeppler, S.M. and Lynch, J.P., 2005a. Mapping of QTL controlling root hair length in maize (Zea mays L.) under phosphorus deficiency. Plant and Soil, 270 (1/2), 299-310.
Zhu, J.M., Kaeppler, S.M. and Lynch, J.P., 2005b. Mapping of QTLs for lateral root branching and length in maize (Zea mays L.) under differential phosphorus supply. Theoretical and Applied Genetics, 111 (4), 688-695.
Zhu, J.M., Chen, S.X., Alvarez, S., et al., 2006. Cell wall proteome in the maize primary root elongation zone. I. Extraction and identification of water-soluble and lightly ionically bound proteins. Plant Physiology, 140 (1), 311-325.
Author information
Authors and Affiliations
Editor information
Editors and Affiliations
Rights and permissions
Copyright information
© 2007 Springer
About this paper
Cite this paper
Tuberosa, R., Salvi, S. (2007). From QTLS to Genes Controlling Root Traits in Maize. In: Spiertz, J., Struik, P., Laar, H.V. (eds) Scale and Complexity in Plant Systems Research. Wageningen UR Frontis Series, vol 21. Springer, Dordrecht. https://doi.org/10.1007/1-4020-5906-X_2
Download citation
DOI: https://doi.org/10.1007/1-4020-5906-X_2
Publisher Name: Springer, Dordrecht
Print ISBN: 978-1-4020-5904-9
Online ISBN: 978-1-4020-5906-3
eBook Packages: Biomedical and Life SciencesBiomedical and Life Sciences (R0)